Plant Circular RNA Database

Detail information of AT4G05050_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT4G05050_circ_g.2
					
						ID in PlantcircBase
						ath_circ_029752
					
						Alias
						At_ciR510
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 2588457-2588684  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						circRNA_finder, find_circ
					
						Parent gene
						
							AT4G05050						
					
						Parent gene annotation
						
							Polyubiquitin
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G05050_circ_g.1 4_circ_ag.3 AT4G05050_circ_g.4 AT4G05050_circ_g.5 AT4G05050_circ_g.6 AT4G05050_circ_g.7 AT4G05050_circ_g.8 AT4G05050_circ_g.9 AT4G05050_circ_g.10 AT4G05060_circ_g.1 AT4G05060_circ_g.2 AT4G05060_circ_g.3 AT4G05060_circ_g.4 AT4G05060_circ_g.5 4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 4_circ_ag.10 4_circ_ag.11 AT4G05150_circ_g.1 AT4G05160_circ_g.1 AT4G05160_circ_g.2 AT4G05160_circ_g.3 AT4G05160_circ_g.4 AT4G05170_circ_g.1 AT4G05180_circ_g.1 AT4G05190_circ_g.1 AT4G05190_circ_g.2 AT4G05190_circ_g.3 AT4G05190_circ_g.4 AT4G05190_circ_g.5 AT4G05190_circ_g.6 AT4G05190_circ_g.7 AT4G05190_circ_g.8 AT4G05190_circ_g.9 AT4G05320_circ_g.1 AT4G05320_circ_g.2 AT4G05320_circ_g.3 AT4G05320_circ_g.4 AT4G05320_circ_g.5 AT4G05320_circ_g.6 AT4G05320_circ_g.7 AT4G05320_circ_g.8 AT4G05320_circ_g.9 AT4G05320_circ_g.10 AT4G05320_circ_g.11 AT4G05320_circ_g.12 AT4G05320_circ_g.13 AT4G05320_circ_g.14 AT4G05320_circ_g.15 AT4G05320_circ_g.16 AT4G05320_circ_g.17 AT4G05320_circ_g.18 AT4G05320_circ_g.19 AT4G05320_circ_g.20 AT4G05320_circ_g.21 AT4G05320_circ_g.22 AT4G05320_circ_g.23 AT4G05320_circ_g.24 AT4G05320_circ_g.25 AT4G05320_circ_g.26 AT4G05320_circ_g.27 AT4G05320_circ_g.28 AT4G05320_circ_g.29 AT4G05320_circ_g.30 AT4G05320_circ_g.31 AT4G05320_circ_g.32 AT4G05320_circ_g.33 AT4G05320_circ_g.34 AT4G05320_circ_g.35 AT4G05320_circ_g.36 AT4G05320_circ_g.37 AT4G05320_circ_g.38 AT4G05320_circ_g.39 AT4G05320_circ_g.40 AT4G05320_circ_g.41 AT4G05320_circ_g.42 AT4G05320_circ_g.43 AT4G05320_circ_g.44 AT4G05320_circ_g.45 						
					
						Support reads
						8/4
					
						Tissues
						leaf/aerial, whole_plant
					
						Exon boundary  
						
							No-No							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						AT4G05050.4:1
AT4G05050.2:1
AT4G05050.3:1
AT4G05050.1:1

General Information
CircRNA Name	AT4G05050_circ_g.2
ID in PlantcircBase	ath_circ_029752
Alias	At_ciR510
Organism	Arabidpsis thaliana
Position	chr4: 2588457-2588684 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	circRNA_finder, find_circ
Parent gene	AT4G05050
Parent gene annotation	Polyubiquitin
Parent gene strand	-
Alternative splicing	AT4G05050_circ_g.1 4_circ_ag.3 AT4G05050_circ_g.4 AT4G05050_circ_g.5 AT4G05050_circ_g.6 AT4G05050_circ_g.7 AT4G05050_circ_g.8 AT4G05050_circ_g.9 AT4G05050_circ_g.10 AT4G05060_circ_g.1 AT4G05060_circ_g.2 AT4G05060_circ_g.3 AT4G05060_circ_g.4 AT4G05060_circ_g.5 4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 4_circ_ag.10 4_circ_ag.11 AT4G05150_circ_g.1 AT4G05160_circ_g.1 AT4G05160_circ_g.2 AT4G05160_circ_g.3 AT4G05160_circ_g.4 AT4G05170_circ_g.1 AT4G05180_circ_g.1 AT4G05190_circ_g.1 AT4G05190_circ_g.2 AT4G05190_circ_g.3 AT4G05190_circ_g.4 AT4G05190_circ_g.5 AT4G05190_circ_g.6 AT4G05190_circ_g.7 AT4G05190_circ_g.8 AT4G05190_circ_g.9 AT4G05320_circ_g.1 AT4G05320_circ_g.2 AT4G05320_circ_g.3 AT4G05320_circ_g.4 AT4G05320_circ_g.5 AT4G05320_circ_g.6 AT4G05320_circ_g.7 AT4G05320_circ_g.8 AT4G05320_circ_g.9 AT4G05320_circ_g.10 AT4G05320_circ_g.11 AT4G05320_circ_g.12 AT4G05320_circ_g.13 AT4G05320_circ_g.14 AT4G05320_circ_g.15 AT4G05320_circ_g.16 AT4G05320_circ_g.17 AT4G05320_circ_g.18 AT4G05320_circ_g.19 AT4G05320_circ_g.20 AT4G05320_circ_g.21 AT4G05320_circ_g.22 AT4G05320_circ_g.23 AT4G05320_circ_g.24 AT4G05320_circ_g.25 AT4G05320_circ_g.26 AT4G05320_circ_g.27 AT4G05320_circ_g.28 AT4G05320_circ_g.29 AT4G05320_circ_g.30 AT4G05320_circ_g.31 AT4G05320_circ_g.32 AT4G05320_circ_g.33 AT4G05320_circ_g.34 AT4G05320_circ_g.35 AT4G05320_circ_g.36 AT4G05320_circ_g.37 AT4G05320_circ_g.38 AT4G05320_circ_g.39 AT4G05320_circ_g.40 AT4G05320_circ_g.41 AT4G05320_circ_g.42 AT4G05320_circ_g.43 AT4G05320_circ_g.44 AT4G05320_circ_g.45
Support reads	8/4
Tissues	leaf/aerial, whole_plant
Exon boundary	No-No "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	AT4G05050.4:1 AT4G05050.2:1 AT4G05050.3:1 AT4G05050.1:1

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
						 Sequences
					
						Splice junction sequence  
						
							GTTGCTTTCCGGCGAAGATCAACCTCTGCTGGTCCGGAGGAATACCCTCCTTATCTTGGATCTT
GGCCTTGACGTTGTCAATGGTGTCAGAGCTCTCCACttcaagagtgatggtctttccggtcaaa
gtctttacgaagatctgcatacctccacgcagacgcaagaccaaatgaagcgtagactccttct
ggatgttg

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

						Full-length trsnacripts
						
							Transcript length: 228
Transcript exons: 2588457-2588684
TTCAAGAGTGATGGTCTTTCCGGTCAAAGTCTTTACGAAGATCTGCATACCTCCACGCAGACGC
AAGACCAAATGAAGCGTAGACTCCTTCTGGATGTTGTAATCCGCCAAAGTTCTGCCGTCCTCAA
GTTGCTTTCCGGCGAAGATCAACCTCTGCTGGTCCGGAGGAATACCCTCCTTATCTTGGATCTT
GGCCTTGACGTTGTCAATGGTGTCAGAGCTCTCAAC
						
						Genomic sequence
						
							TTCAAGAGTGATGGTCTTTCCGGTCAAAGTCTTTACGAAGATCTGCATACCTCCACGCAGACGC
AAGACCAAATGAAGCGTAGACTCCTTCTGGATGTTGTAATCCGCCAAAGTTCTGCCGTCCTCAA
GTTGCTTTCCGGCGAAGATCAACCTCTGCTGGTCCGGAGGAATACCCTCCTTATCTTGGATCTT
GGCCTTGACGTTGTCAATGGTGTCAGAGCTCTCCAC

Sequences
Splice junction sequence	GTTGCTTTCCGGCGAAGATCAACCTCTGCTGGTCCGGAGGAATACCCTCCTTATCTTGGATCTT GGCCTTGACGTTGTCAATGGTGTCAGAGCTCTCCACttcaagagtgatggtctttccggtcaaa gtctttacgaagatctgcatacctccacgcagacgcaagaccaaatgaagcgtagactccttct ggatgttg
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 228 Transcript exons: 2588457-2588684 TTCAAGAGTGATGGTCTTTCCGGTCAAAGTCTTTACGAAGATCTGCATACCTCCACGCAGACGC AAGACCAAATGAAGCGTAGACTCCTTCTGGATGTTGTAATCCGCCAAAGTTCTGCCGTCCTCAA GTTGCTTTCCGGCGAAGATCAACCTCTGCTGGTCCGGAGGAATACCCTCCTTATCTTGGATCTT GGCCTTGACGTTGTCAATGGTGTCAGAGCTCTCAAC
Genomic sequence	TTCAAGAGTGATGGTCTTTCCGGTCAAAGTCTTTACGAAGATCTGCATACCTCCACGCAGACGC AAGACCAAATGAAGCGTAGACTCCTTCTGGATGTTGTAATCCGCCAAAGTTCTGCCGTCCTCAA GTTGCTTTCCGGCGAAGATCAACCTCTGCTGGTCCGGAGGAATACCCTCCTTATCTTGGATCTT GGCCTTGACGTTGTCAATGGTGTCAGAGCTCTCCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							zma_circ_004733 zma_circ_004922 zma_circ_004946 zma_circ_004927 
zma_circ_004912 						
					
						PMCS
						1.657714263

Conservation Information
Conserved circRNAs	zma_circ_004733 zma_circ_004922 zma_circ_004946 zma_circ_004927 zma_circ_004912
PMCS	1.657714263

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of AT4G05050_circ_g.2

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